genome.fa.s4.2.7.7.80.10.50.1000.139.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  139  of  235  ( 28198 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46814735--46814870	26	5.2	26	97	0	236	33	5	24	36	1.78
46816488--46816629	27	5.3	27	89	2	187	16	23	23	36	1.94
46816488--46816629	54	2.6	54	90	4	207	16	23	23	36	1.94
46825627--46825651	13	1.9	13	100	0	50	0	16	16	68	1.22
46833730--46833964	120	2.0	120	89	1	364	43	13	15	26	1.84
46835768--46835812	20	2.2	20	100	0	90	17	20	20	42	1.90
46838003--46838046	20	2.2	20	91	0	70	43	15	25	15	1.87
46847351--46847394	22	2.0	22	82	8	54	45	25	0	29	1.54
46854336--46854388	26	2.0	26	92	0	88	22	15	22	39	1.91
46856115--46856163	24	2.0	24	100	0	98	61	16	6	16	1.53
46857367--46857417	23	2.2	23	86	6	68	39	7	15	37	1.77
46857547--46857599	19	2.9	19	81	13	67	60	3	0	35	1.15
46863161--46863551	30	13.0	30	98	0	739	46	6	20	26	1.75
46868126--46868516	30	13.0	30	97	0	721	46	6	20	26	1.75
46875412--46875451	21	2.0	21	90	5	64	15	12	0	72	1.12
46876027--46876085	29	2.1	28	81	9	66	54	15	5	25	1.61
46876711--46876966	52	5.0	52	67	22	123	40	2	10	46	1.52
46876710--46877141	151	2.9	144	85	9	550	41	3	9	45	1.54
46877713--46877743	10	2.9	11	90	9	55	19	6	0	74	1.03
46879146--46879199	18	3.0	17	79	12	63	57	0	0	42	0.98
46879146--46879201	19	2.9	19	77	15	62	57	0	0	42	0.99
46879112--46879199	10	9.1	10	68	26	57	57	0	2	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46880345--46880421	38	2.0	38	94	0	136	25	16	19	37	1.93
46880357--46880446	38	2.4	38	80	14	107	25	17	18	37	1.93
46883754--46883804	20	2.5	20	75	9	50	54	0	5	39	1.24
46889110--46889163	24	2.2	24	83	6	65	37	29	3	29	1.75
46894784--46894843	29	2.1	29	100	0	120	26	30	11	31	1.92
46901902--46901942	20	2.0	20	100	0	82	48	19	0	31	1.49
46902925--46903078	42	3.6	42	73	11	123	30	24	17	27	1.97
46902956--46903065	44	2.6	42	78	9	116	31	25	18	24	1.97
46902902--46903065	86	1.9	85	83	3	213	29	26	18	25	1.98
46907412--46907473	29	2.1	29	84	0	79	29	32	19	19	1.96
46908486--46908586	41	2.5	40	85	4	123	33	27	12	25	1.93
46917175--46917215	21	2.0	21	95	0	73	36	17	9	36	1.82
46934624--46935609	92	11.5	88	78	16	1058	32	18	22	26	1.97
46934563--46935609	170	6.2	170	98	0	1997	32	18	22	26	1.97
46935491--46935713	45	4.9	45	77	9	202	31	17	25	26	1.97
46935491--46935713	90	2.5	90	81	7	256	31	17	25	26	1.97
46948415--46948491	28	2.8	28	91	0	127	28	28	14	28	1.95
46948478--46948613	40	3.4	40	86	6	186	31	26	17	24	1.97
46954085--46954182	35	2.7	37	87	12	150	37	10	16	35	1.82
46954085--46954175	19	4.9	19	92	8	161	37	10	15	36	1.83
46954085--46954198	19	5.8	22	87	10	96	36	9	15	37	1.81
46954466--46954499	17	1.9	18	88	5	52	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46962858--46963501	220	3.0	209	82	6	611	32	18	22	26	1.97
46963369--46963582	78	2.8	77	87	2	288	31	18	23	26	1.98
46963154--46963698	291	1.9	292	94	1	977	32	18	23	25	1.97
46963523--46963745	45	4.9	45	77	9	202	31	17	25	26	1.97
46963523--46963745	90	2.5	90	81	7	256	31	17	25	26	1.97
46964101--46964198	35	2.7	37	87	12	150	37	10	16	35	1.82
46964101--46964191	19	4.9	19	92	8	161	37	10	15	36	1.83
46964101--46964214	19	5.8	22	87	10	96	36	9	15	37	1.81
46964481--46964516	18	1.9	19	88	5	56	30	0	0	69	0.89
46968616--46968672	29	2.0	29	96	0	105	22	19	10	47	1.80
46969903--46969988	42	2.0	42	82	4	102	18	37	23	20	1.94
46976676--46976727	20	2.5	21	81	6	70	63	1	0	34	1.06
46976685--46976739	20	2.8	20	81	10	69	60	1	0	38	1.08
46976685--46976738	19	2.8	19	83	5	65	59	1	0	38	1.08
46976757--46976834	9	8.0	9	81	13	66	66	2	3	26	1.22
46976759--46976834	21	3.8	20	80	13	68	68	2	3	25	1.20
46976801--46976837	9	4.1	9	100	0	74	64	0	10	24	1.25
46977560--46977669	26	4.2	26	97	0	184	33	5	24	36	1.79
46984890--46984914	5	5.0	5	100	0	50	80	0	0	20	0.72
46993505--46993548	6	7.3	6	84	0	52	20	2	38	38	1.65
47000730--47000754	6	4.2	6	100	0	50	16	16	0	68	1.22
47005869--47005893	10	2.5	10	100	0	50	56	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47011733--47011836	54	1.9	54	82	5	129	37	2	15	44	1.61
47012193--47012226	15	2.3	15	89	0	50	41	14	17	26	1.88
47022356--47022625	46	5.9	45	82	3	270	41	14	22	21	1.90
47022367--47022620	91	2.8	92	82	2	278	40	15	22	20	1.90
47025088--47025140	21	2.5	21	87	0	79	32	35	9	22	1.86
47025641--47025676	2	18.0	2	100	0	72	0	50	0	50	1.00
47030054--47030088	16	2.2	17	90	10	56	60	0	20	20	1.37
47032647--47032694	24	2.0	24	100	0	96	16	33	25	25	1.96
47032891--47033014	33	3.7	33	78	9	117	43	0	15	41	1.46
47033077--47033326	127	2.0	127	88	1	376	38	14	17	30	1.90
47036318--47036374	25	2.3	23	78	18	62	52	3	1	42	1.28
47036771--47036813	18	2.4	18	80	0	50	39	11	25	23	1.88
47043966--47043998	13	2.4	14	90	10	50	42	3	15	39	1.62
47050443--47050519	12	6.3	12	72	11	50	51	14	15	18	1.76
47050452--47050629	6	28.8	6	74	16	150	48	14	19	17	1.81
47050452--47050629	37	4.8	37	83	8	145	48	14	19	17	1.81
47050452--47050629	25	7.2	24	80	9	150	48	14	19	17	1.81
47050464--47050629	31	5.4	31	75	16	173	47	15	19	18	1.83
47050464--47050629	62	2.7	62	93	0	278	47	15	19	18	1.83
47050469--47050601	19	6.8	19	75	19	130	47	15	19	17	1.83
47050856--47050907	27	2.0	26	84	3	68	34	21	26	17	1.95
47051153--47051408	27	9.2	27	81	8	246	23	20	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47051152--47051410	81	3.1	81	82	8	290	23	20	18	37	1.94
47051305--47051382	35	2.2	35	95	0	138	17	17	21	42	1.89
47051393--47051839	27	16.6	27	81	0	401	31	7	20	39	1.81
47051501--47051839	27	12.6	27	84	0	410	31	8	20	39	1.82
47057421--47057489	34	2.0	34	94	0	120	36	15	13	34	1.87
47058136--47058202	33	2.0	33	94	5	118	17	26	20	34	1.96
47058346--47058865	257	2.0	258	84	2	670	34	15	24	25	1.94
47064083--47064174	46	2.0	47	87	6	134	22	23	19	33	1.97
47064022--47064313	134	2.2	135	86	1	399	26	22	17	33	1.96
47064031--47064205	44	3.9	44	71	12	117	27	24	16	32	1.96
47064334--47064745	87	4.7	85	71	17	267	27	18	20	34	1.95
47064435--47064834	87	4.6	86	73	11	294	27	17	20	34	1.95
47064521--47064925	176	2.3	176	86	5	539	27	17	20	34	1.95
47068857--47068957	53	1.9	53	95	0	184	49	4	19	25	1.68
47069899--47070208	118	2.6	118	100	0	620	27	31	17	23	1.97
47070993--47071085	42	2.2	42	84	5	116	19	10	35	34	1.86
47085829--47085857	4	7.2	4	100	0	58	24	0	0	75	0.80
47086189--47086297	43	2.6	43	77	15	111	29	16	23	30	1.96
47086204--47086316	43	2.7	43	84	6	142	26	16	25	30	1.97
47086721--47086818	19	5.2	19	91	7	155	38	9	16	35	1.80
47086711--47086796	36	2.4	35	83	14	106	39	9	15	36	1.79
47086740--47086796	17	3.5	15	84	15	53	38	10	15	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47086721--47086818	36	2.6	37	88	9	144	38	9	16	35	1.80
47089507--47089531	12	2.1	12	100	0	50	76	0	24	0	0.80
47092045--47092101	1	57.0	1	75	0	51	87	0	12	0	0.54
47092047--47092100	8	6.9	8	83	12	76	87	0	12	0	0.56
47092046--47092101	9	6.9	9	82	15	61	87	0	12	0	0.54
47092048--47092099	15	3.4	15	87	12	79	86	0	13	0	0.57
47092045--47092098	22	2.5	22	90	6	83	87	0	12	0	0.56
47093028--47093405	132	2.9	130	88	1	540	29	15	24	29	1.96
47093191--47093993	176	4.6	176	94	0	1363	29	15	25	29	1.96
47094346--47094396	26	2.0	26	84	0	66	25	19	19	35	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235